PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Loteae; Lotus

Family

C2H2

Protein Properties

Length: 607aa MW: 64897.3 Da PI: 9.5157

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Lj5g3v2241010.1	genome	Kazusa	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.1	3.1e-05	75	97	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H Lj5g3v2241010.1 75 FICEVCNKGFQREQNLQLHRRGH 97 89*******************88 PP
2	zf-C2H2	11.8	0.00074	151	173	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k + +s+ k H +t+ Lj5g3v2241010.1 151 WKCDKCSKKYAVQSDWKAHSKTC 173 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	1.4E-7	74	97	No hit	No description
Gene3D	G3DSA:3.30.160.60	6.8E-6	74	97	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
Pfam	PF12171	3.0E-5	75	97	IPR022755	Zinc finger, double-stranded RNA binding
SMART	SM00355	0.0052	75	97	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.99	75	97	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	77	97	IPR007087	Zinc finger, C2H2
SMART	SM00355	130	116	146	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	6.9E-5	139	172	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.4E-7	146	171	No hit	No description
SMART	SM00355	150	151	171	IPR015880	Zinc finger, C2H2-like

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003676	Molecular Function	nucleic acid binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 607 aa Download sequence Send to blast
MAASSSSASL FGFREEDNQM NQQQQHSLVA AAPSSSATPS APPPQKKKRN QPGTPNPDAE 60 VIALSPKTLM ATNRFICEVC NKGFQREQNL QLHRRGHNLP WKLKQKTNKE PKRKVYLCPE 120 PTCVHHDPSR ALGDLTGIKK HYSRKHGEKK WKCDKCSKKY AVQSDWKAHS KTCGTREYRC 180 DCGTLFSRRD SFITHRAFCD ALAQESARQP PNLSSAIGSH LYGSSSNNMG LALSHVGPQL 240 SNMQPSDLNN NNQSAELLRL GGAAGRTGVQ FDQMFQTSLG PASFRPTQQS VASFFLPHES 300 NQNYHHDQQQ QQQGLVQQNK SFQGLIQLSE LNNHHHHNHN SNSPSGGANN NSLFNLPFLS 360 SNNSTNSSNT SFSDHFNENG SVNDQATNFF TGNVMGGGGG GGSHQQHHQT TATTSAAPSL 420 FSTSLQANNS AMAHMSATAL LQKAAQLGTT SSNSTASLLK SFGSSSSSSA PKPMAGAAAN 480 YGGVGVGMFN EQNNLQDLMN SFAAASGGGG HNNVSSMFET GGFEAYDRAG GVSRDQQKMQ 540 AAMSIGGSDR LSTRDFLGVG QIVRSMSGGG QREQQHAFNA LEAERNAAAA TAAPSGQSFG 600 GGGGNFQ

Sequence ? help Back to Top

Protein Sequence Length: 607 aa Download sequence Send to blast

MAASSSSASL FGFREEDNQM NQQQQHSLVA AAPSSSATPS APPPQKKKRN QPGTPNPDAE  60
VIALSPKTLM ATNRFICEVC NKGFQREQNL QLHRRGHNLP WKLKQKTNKE PKRKVYLCPE  120
PTCVHHDPSR ALGDLTGIKK HYSRKHGEKK WKCDKCSKKY AVQSDWKAHS KTCGTREYRC  180
DCGTLFSRRD SFITHRAFCD ALAQESARQP PNLSSAIGSH LYGSSSNNMG LALSHVGPQL  240
SNMQPSDLNN NNQSAELLRL GGAAGRTGVQ FDQMFQTSLG PASFRPTQQS VASFFLPHES  300
NQNYHHDQQQ QQQGLVQQNK SFQGLIQLSE LNNHHHHNHN SNSPSGGANN NSLFNLPFLS  360
SNNSTNSSNT SFSDHFNENG SVNDQATNFF TGNVMGGGGG GGSHQQHHQT TATTSAAPSL  420
FSTSLQANNS AMAHMSATAL LQKAAQLGTT SSNSTASLLK SFGSSSSSSA PKPMAGAAAN  480
YGGVGVGMFN EQNNLQDLMN SFAAASGGGG HNNVSSMFET GGFEAYDRAG GVSRDQQKMQ  540
AAMSIGGSDR LSTRDFLGVG QIVRSMSGGG QREQQHAFNA LEAERNAAAA TAAPSGQSFG  600
GGGGNFQ

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-33	147	208	3	64	Zinc finger protein JACKDAW
5b3h_F	2e-33	147	208	3	64	Zinc finger protein JACKDAW
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	390	402	TGNVMGGGGGGGS

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Lja.1319	0.0	flower\| pod\| root

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Highly expressed in leaf tissues. {ECO:0000305\|PubMed:22898356}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor acting as a positive regulator of the starch synthase SS4. Controls chloroplast development and starch granule formation (PubMed:22898356). Binds DNA via its zinc fingers (PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). {ECO:0000269\|PubMed:22898356, ECO:0000269\|PubMed:24821766}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00255	DAP	Transfer from AT2G02070	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Lj5g3v2241010.1

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AP009792	0.0	AP009792.1 Lotus japonicus genomic DNA, clone: LjT42M11, TM2098, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_019441741.1	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic-like
Swissprot	Q9ZUL3	1e-144	IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBL	A0A4P1RKH7	0.0	A0A4P1RKH7_LUPAN; Uncharacterized protein
STRING	GLYMA10G42660.1	0.0	(Glycine max)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1536	33	97

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02070.1	1e-108	indeterminate(ID)-domain 5

Publications ? help Back to Top
Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755]